miRNA display CGI


Results 1 - 20 of 30 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
23980 3' -63.5 NC_005262.1 + 9139 1.08 0.000288
Target:  5'- cCGGCGCCGGGCCGGUCGGAAUGCGGAu -3'
miRNA:   3'- -GCCGCGGCCCGGCCAGCCUUACGCCU- -5'
23980 3' -63.5 NC_005262.1 + 42150 0.74 0.098578
Target:  5'- gCGGCGCCGGGcCCGGUCGcGGccgaucgucuguacGUGaUGGGc -3'
miRNA:   3'- -GCCGCGGCCC-GGCCAGC-CU--------------UAC-GCCU- -5'
23980 3' -63.5 NC_005262.1 + 46515 0.7 0.198905
Target:  5'- gCGGCGCggCGGGCCccugCGGAccuUGCGGGc -3'
miRNA:   3'- -GCCGCG--GCCCGGcca-GCCUu--ACGCCU- -5'
23980 3' -63.5 NC_005262.1 + 48164 0.7 0.209005
Target:  5'- uCGGCGCCGGGCgGcucGUCGcGGcagGUGCGa- -3'
miRNA:   3'- -GCCGCGGCCCGgC---CAGC-CU---UACGCcu -5'
23980 3' -63.5 NC_005262.1 + 4664 0.7 0.214219
Target:  5'- uCGGUugaacagccauGCCGcGGCCGGaUCGGGccGCGGc -3'
miRNA:   3'- -GCCG-----------CGGC-CCGGCC-AGCCUuaCGCCu -5'
23980 3' -63.5 NC_005262.1 + 50087 0.7 0.214219
Target:  5'- gGGCGCCGGcGCggcuucauCGG-CGGGA-GCGGGc -3'
miRNA:   3'- gCCGCGGCC-CG--------GCCaGCCUUaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 48429 0.69 0.2362
Target:  5'- -aGCGCCGGGUCGGUCG---UGCcGAg -3'
miRNA:   3'- gcCGCGGCCCGGCCAGCcuuACGcCU- -5'
23980 3' -63.5 NC_005262.1 + 50172 0.69 0.253903
Target:  5'- gCGGCGCgGGuuCGGUCGGcgcaGCGGc -3'
miRNA:   3'- -GCCGCGgCCcgGCCAGCCuua-CGCCu -5'
23980 3' -63.5 NC_005262.1 + 59894 0.68 0.272681
Target:  5'- uGGCGCCugcGGGCCGGUgcccucgaGGAAcGCGu- -3'
miRNA:   3'- gCCGCGG---CCCGGCCAg-------CCUUaCGCcu -5'
23980 3' -63.5 NC_005262.1 + 27454 0.68 0.272681
Target:  5'- aGGCGCCGacgacGGCCucGGUCGGGuucuCGGGc -3'
miRNA:   3'- gCCGCGGC-----CCGG--CCAGCCUuac-GCCU- -5'
23980 3' -63.5 NC_005262.1 + 18484 0.68 0.292558
Target:  5'- aGGCGCuCGGaaGCCGGUgCGGGucGUGCa-- -3'
miRNA:   3'- gCCGCG-GCC--CGGCCA-GCCU--UACGccu -5'
23980 3' -63.5 NC_005262.1 + 24919 0.68 0.292558
Target:  5'- aGGaCGCCGaGGCaUGG-CGGGAUGCGc- -3'
miRNA:   3'- gCC-GCGGC-CCG-GCCaGCCUUACGCcu -5'
23980 3' -63.5 NC_005262.1 + 52335 0.68 0.292558
Target:  5'- aGGCGCCGGacgcguaucGCCGGau-GAagGCGGAc -3'
miRNA:   3'- gCCGCGGCC---------CGGCCagcCUuaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 40465 0.68 0.292558
Target:  5'- cCGGCcgugcauggGCCGGGCUGGUaucug-GCGGAc -3'
miRNA:   3'- -GCCG---------CGGCCCGGCCAgccuuaCGCCU- -5'
23980 3' -63.5 NC_005262.1 + 29141 0.68 0.292558
Target:  5'- gGGuUGCCGcGGCUGuUCGuGAUGCGGAa -3'
miRNA:   3'- gCC-GCGGC-CCGGCcAGCcUUACGCCU- -5'
23980 3' -63.5 NC_005262.1 + 43141 0.68 0.292558
Target:  5'- gCGGCGCgCGGuGCCGGcCGGGucgAUGUa-- -3'
miRNA:   3'- -GCCGCG-GCC-CGGCCaGCCU---UACGccu -5'
23980 3' -63.5 NC_005262.1 + 39857 0.67 0.306427
Target:  5'- -cGCGUCGGGauGGUCGGcugGCGGc -3'
miRNA:   3'- gcCGCGGCCCggCCAGCCuuaCGCCu -5'
23980 3' -63.5 NC_005262.1 + 25336 0.67 0.313548
Target:  5'- gCGGCGCaGGaGCCGGcguugcgcgCGGuucggGCGGAa -3'
miRNA:   3'- -GCCGCGgCC-CGGCCa--------GCCuua--CGCCU- -5'
23980 3' -63.5 NC_005262.1 + 49836 0.67 0.313548
Target:  5'- gGGCGCgGGcGCCGccggcGUCGG--UGCGGc -3'
miRNA:   3'- gCCGCGgCC-CGGC-----CAGCCuuACGCCu -5'
23980 3' -63.5 NC_005262.1 + 51466 0.67 0.320794
Target:  5'- aGGCGCgGccuuGGCCGGcgucgCGGAcgGCGcGGu -3'
miRNA:   3'- gCCGCGgC----CCGGCCa----GCCUuaCGC-CU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.